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The ProDom references

Kahn, D., Rezvoy, C. and Vivien, F. (2008) Parallel large scale inference of protein domain families. Proceedings of the 14th International Conference on Parallel and Distributed Systems, December 8-10, 2008, Melbourne, Australia, IEEE, pp. 72-79.
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[BRU] Catherine Bru, Emmanuel Courcelle, Sébastien Carrère, Yoann Beausse, Sandrine Dalmar, and Daniel Kahn (2005) The ProDom database of protein domain families: more emphasis on 3D. Nucleic Acids Res. 33: D212-D215
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[SERV2] Servant F, Bru C, Carrère S, Courcelle E, Gouzy J, Peyruc D, Kahn D (2002) ProDom: Automated clustering of homologous domains. Briefings in Bioinformatics. vol 3, no 3:246-251

[FALQ] Falquet L, Pagni M, Bucher P, Hulo N, Sigrist CJ, Hofmann K, Bairoch A. (2002). The PROSITE database, its status in 2002 Nucleic Acids Res. 30:235-238
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[THOM] Julie D. Thompson, Frédéric Plewniak, Raymond Ripp, Jean-Claude Thierry and Olivier Poch (2001). Towards a Reliable Objective Function for Multiple Sequence Alignments. J.Mol.Biol. (2001) 314, 937-951.
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[SERV1] Corpet F, Servant F, Gouzy J, Kahn D (2000) ProDom and ProDom-CG: tools for protein domain analysis and whole genome comparisons. Nucleic Acids Res. 28:267-269
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[BAIR]Bairoch A. and Apweiler R. (2000). The SWISS-PROT protein sequence database and its supplement TrEMBL in 2000. Nucleic Acids Res. 28:45-48
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[BATE]Bateman A, Birney E, Cerruti L, Durbin R, Etwiller L, Eddy SR, Griffiths-Jones S, Howe KL, Marshall M, Sonnhammer EL. (2002). The Pfam Protein Families Database. Nucleic Acids Research 30:276-280
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[APWE]Apweiler R et al (the Interpro Consortium) (2000) InterPro--an integrated documentation resource for protein families, domains and functional sites. Bioinformatics 2000 12:1145-1150
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[CORP2]Corpet F., Gouzy J., Kahn D. (1999) Bowsing protein families via the 'Rich Family Description' format, Bioinformatics. 15: 1020-1027
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[GOUZ2]Gouzy J., Corpet F. & Kahn D. (1999). Whole genome protein domain analysis using a new method for domain clustering, Computers and Chemistry. 23:333-340

[GUEX]Guex, N. and Peitsch, M. C. (1997) SWISS-MODEL and the Swiss-PdbViewer: An environment for comparative protein modelling. Electrophoresis 18:2714-2723

[GOUZ1]Gouzy J., Corpet F. and Kahn D. (1996). Graphical interface for ProDom domain families, TIBS, 21:493

[ETZO]Etzold T., Ulyanov A., and Argos P., SRS: Information Retrieval System for Molecular Biology Data Banks. Methods in Enzymology v. 266, p. 114, 1996

[ALTS2]Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402

(GLEM]Gl�met E. and Codani J.J. (1997). LASSAP, a LArge Scale Sequence compArison Package, Comp. Appl. BioSci

[GISH]Gish, Warren (1994-1997). unpublished

[BOUT]Boutell T., Graphic Library : gd 1.1 copyright 1994, 1995, Quest Protein Database Center, Cold Spring Harbor Labs

[CLAV2]Claverie J.M. & States D.J. (1993). Information Enhancement Methods for Large Scale Sequence Analysis,Computers and Chemistry 17:191-201

[CLAV1]Claverie J.M. (1993). Large Scale Sequence Analysis, Chapter 36 in "Automated DNA sequencing and analysis techniques" (J.C. Venter, ed), Academic Press

[ALTS1]Altschul SF, Gish W, Miller W, Myers EW, & Lipman DJ, 1990,Basic local alignment search tool, J. Mol. Biol. 215:403-410

[CORP1]Corpet F. (1988). Multiple sequence alignment with hierarchical clustering, Nucl. Acids Res. 16:10881-10890

[PEIT2]Peitsch, M. C. (1996). ProMod and Swiss-Model: Internet-based tools for automated comparative protein modelling. Biochem Soc Trans 24:274-279.

[ROST]Rost B. (1996). PHD predicting one-dimensional protein structure by profile based neural networks. Meth. in Enzym. 266:525-539

[WOOT2]Wootton, J. C. and S. Federhen (1996). Analysis of compositionally biased regions in sequence databases. Methods in Enzymology 266:554-571

[PEIT1]Peitsch, M.C. (1995). Protein Modelling by E-mail. Bio/Technology 13:658-660

[SONN]Sonnhammer, E.L.L. and Kahn, D. (1994). Modular arrangement of proteins as inferred from analysis of homology, Protein Sci. 3:482-492

[WOOT1]Wootton, J.C. and S. Federhen (1993). Statistics of local complexity in amino acid sequences and sequence databases. Computers in Chemistry 17:149-163

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ProDom - Server maintained by Dominique Guyot , on behalf of the ProDom team
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Last updated on December 22nd, 2011.